Additional file 1: of Integrative clustering reveals a novel split in the luminal A subtype of breast cancer with impact on outcome

a Log2-transformed and median-centered RPPA data. b Molecular classifications of the 425 Oslo2 tumors. c Pearson correlation values and corresponding p-values calculated for correlation between each molecular subtype level and each COCA cluster by giving 0/1 numerical values to the binary categorical variables. d PAM50 distribution in total number and percentage in each of the six COCA clusters. e P-values for association between each of the six COCA clusters and clinical/molecular classification of the tumors (chi-squared association test). The p-values are Bonferroni-corrected for multiple testing. f miRNAs significantly differentially expressed (Benjamini-Hochberg adjusted p-value <0.01 and log2 |fold-change| >1) between luminal A samples in COCA cluster 1 and COCA cluster 4. g Annotation of the 1808 genes that were correlated with the 71 miRNAs differentially expressed between luminal A tumors in COCA cluster 1 versus COCA cluster 4 (absolute Spearman correlation >0.4). h Pathways enriched among the 850 genes upregulated in luminal A tumors in COCA cluster 4. i miRNAs differentially expressed between luminal A tumors in COCA cluster 1 vs COCA cluster 4 and predicted target genes that were among the proteins differentially expressed between luminal A tumors in COCA cluster 1 vs COCA cluster 4. j Comparison of the composition of RPPA-defined subtypes in luminal A tumors separated on miRNA expression. The RPPA subtype data are taken from [9].(XLSX 871 kb)